RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 033154
(126 letters)
>3r8n_N 30S ribosomal protein S14; protein biosynthesis, RNA, tRNA,
transfer RNA, 16S ribosomal subunit, RRF; 3.00A
{Escherichia coli} PDB: 1p6g_N 1p87_N 2aw7_N 2avy_N
2i2u_N 2i2p_N* 2qan_N* 2qb9_N* 2qbb_N* 2qbd_N 2qbf_N
2qbh_N* 2qbj_N* 2qou_N* 2qow_N* 2qoy_N* 2qp0_N* 2vho_N
2vhp_N 2ykr_N ...
Length = 100
Score = 102 bits (256), Expect = 8e-30
Identities = 42/92 (45%), Positives = 53/92 (57%)
Query: 35 DHKRRLLATKFELKRKLYKSLYRDVNLPTEVREKYLCKLARLPRNSSFTRLRNRCIFTGR 94
+ KR LA K+ KR K++ DVN E R + KL LPR+SS +R RNRC TGR
Sbjct: 9 EVKRVALADKYFAKRAELKAIISDVNASDEDRWNAVLKLQTLPRDSSPSRQRNRCRQTGR 68
Query: 95 SRAVYEKFRMSRIVFRSLANQGMLMGVKKASW 126
KF +SRI R A +G + G+KKASW
Sbjct: 69 PHGFLRKFGLSRIKVREAAMRGEIPGLKKASW 100
>3bbn_N Ribosomal protein S14; small ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 100
Score = 99.9 bits (250), Expect = 7e-29
Identities = 31/92 (33%), Positives = 44/92 (47%), Gaps = 1/92 (1%)
Query: 35 DHKRRLLATKFELKRKLYKSLYRDVNLPTEVREKYLCKLARLPRNSSFTRLRNRCIFTGR 94
+ KRR L K+ L R+ K R + + KL PRNS+ RL RC TGR
Sbjct: 10 EKKRRNLEQKYHLIRRSSKQEIRK-VTSLSDKWEIHGKLQSPPRNSAPARLHRRCFLTGR 68
Query: 95 SRAVYEKFRMSRIVFRSLANQGMLMGVKKASW 126
RA F +S + R + + +L G ++SW
Sbjct: 69 PRANIRDFGLSGHILREMVHTCLLPGATRSSW 100
>2vqe_N 30S ribosomal protein S14 type Z; tRNA-binding, rRNA-binding,
metal-binding, zinc-finger, translation; HET: TM2 PAR;
2.5A {Thermus thermophilus} SCOP: g.39.1.7 PDB: 1gix_Q*
1hnw_N* 1hnx_N* 1hnz_N* 1hr0_N 1ibk_N* 1ibl_N* 1ibm_N
1jgo_Q* 1jgp_Q* 1jgq_Q* 1ml5_Q* 1xmo_N* 1xmq_N* 1xnq_N*
1xnr_N* 1yl4_Q 2b64_N* 2b9m_N* 2b9o_N* ...
Length = 61
Score = 74.9 bits (185), Expect = 1e-19
Identities = 26/61 (42%), Positives = 36/61 (59%), Gaps = 2/61 (3%)
Query: 66 REKYLCKLARLPRNSSFTRLRNRCIFTGRSRAVYEKFRMSRIVFRSLANQGMLMGVKKAS 125
R+ + K R P+ R RC+ GR+R+VY F + RI R LA++G L GV+KAS
Sbjct: 3 RKALIEKAKRTPKFK--VRAYTRCVRCGRARSVYRFFGLCRICLRELAHKGQLPGVRKAS 60
Query: 126 W 126
W
Sbjct: 61 W 61
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 34.8 bits (79), Expect = 0.004
Identities = 10/58 (17%), Positives = 21/58 (36%), Gaps = 10/58 (17%)
Query: 19 NFWRKMSTVSEKRNIEDHKRRLLATKFELKRKLYKSLY---RDVNLPTEVREKYLCKL 73
+ W+ ++ IE L + RK++ L ++PT + L +
Sbjct: 345 DNWKHVNCDKLTTIIESSLNVL---EPAEYRKMFDRLSVFPPSAHIPTIL----LSLI 395
Score = 31.4 bits (70), Expect = 0.077
Identities = 17/119 (14%), Positives = 37/119 (31%), Gaps = 21/119 (17%)
Query: 8 EKILSATSQCMNFWRKMSTVSEKRNI--EDHKRRLLATKFELKRKLYKSLYRDVNLPTE- 64
+LS W + S+ + + HK L+ + + S+Y ++ + E
Sbjct: 389 TILLSL------IWFDVIK-SDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLEN 441
Query: 65 -------VREKYLCKLARLPRNSSFTRLRN-RCIFTG---RSRAVYEKFRMSRIVFRSL 112
+ + Y + L G ++ E+ + R+VF
Sbjct: 442 EYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDF 500
Score = 29.1 bits (64), Expect = 0.39
Identities = 14/97 (14%), Positives = 31/97 (31%), Gaps = 22/97 (22%)
Query: 20 FWRKMSTVSEKRNIEDHKRRLLATKFELKRKLYKSLYRDVNLPTEVREKYLCKLARLPRN 79
FW + + + + ++LL +++ N+ + +L RL ++
Sbjct: 185 FWLNLKNCNSPETVLEMLQKLL---YQIDPNWTSRSDHSSNIKLRIHSIQA-ELRRLLKS 240
Query: 80 SSFTR----LRN------------RC--IFTGRSRAV 98
+ L N C + T R + V
Sbjct: 241 KPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQV 277
Score = 28.3 bits (62), Expect = 0.74
Identities = 12/85 (14%), Positives = 33/85 (38%), Gaps = 16/85 (18%)
Query: 31 RNIEDHKRRLLATKFELKRKLYKS------LYRDVNL----PTEVREKYLCKLARLPRNS 80
++++D + +L+ + E+ + S R E+ +K++ ++ L N
Sbjct: 36 KDVQDMPKSILSKE-EID-HIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEV--LRINY 91
Query: 81 SF--TRLRNRCIFTGRSRAVYEKFR 103
F + ++ +Y + R
Sbjct: 92 KFLMSPIKTEQRQPSMMTRMYIEQR 116
Score = 27.9 bits (61), Expect = 1.1
Identities = 14/56 (25%), Positives = 19/56 (33%), Gaps = 10/56 (17%)
Query: 32 NIEDHKRRLLATKFELKRKLYK-SLY--RDVNLPTEVRE-KYLCKLARLPRNSSFT 83
+I+ RRL LK K Y+ L +V CK+ R T
Sbjct: 229 SIQAELRRL------LKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVT 278
Score = 25.2 bits (54), Expect = 8.6
Identities = 14/68 (20%), Positives = 27/68 (39%), Gaps = 11/68 (16%)
Query: 3 LAFSREKILSATSQCMNFWRKMSTVSE----KRNIEDHKR---RLLAT--KF--ELKRKL 51
F +KI ++ ++T+ + K I D+ RL+ F +++ L
Sbjct: 500 FRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENL 559
Query: 52 YKSLYRDV 59
S Y D+
Sbjct: 560 ICSKYTDL 567
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna;
HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 28.8 bits (63), Expect = 0.32
Identities = 6/24 (25%), Positives = 10/24 (41%), Gaps = 9/24 (37%)
Query: 29 EKRNIEDHKRRLLATKFELKRKLY 52
EK+ ++ K + KLY
Sbjct: 18 EKQALK---------KLQASLKLY 32
>3oc5_A Toxin coregulated pilus biosynthesis protein F; multidomain
protein, immunoglobulin-like (IG-like) fold, CEL
adhesion; 2.40A {Vibrio cholerae}
Length = 318
Score = 28.7 bits (63), Expect = 0.52
Identities = 21/75 (28%), Positives = 32/75 (42%), Gaps = 8/75 (10%)
Query: 25 STVSEKRNIEDHKRRLLATKFELKRKLYKSLY-----RDVNLPTEVREKYLCKLARLPRN 79
S ++ R ED RLLA ++ +KLY Y D +PT R++ + L
Sbjct: 68 SDGAKTRTKEDFSARLLAGDYDSLQKLYIDFYLAQTTFDWEIPT--RDQ-IETLVNYANE 124
Query: 80 SSFTRLRNRCIFTGR 94
+ N+ TGR
Sbjct: 125 GKLSTALNQEYITGR 139
>2q14_A Phosphohydrolase; BT4208, HD domain, structural genomics, JO center
for structural genomics, JCSG; HET: MSE ADP; 2.20A
{Bacteroides thetaiotaomicron vpi-5482}
Length = 410
Score = 26.5 bits (58), Expect = 2.8
Identities = 6/71 (8%), Positives = 22/71 (30%), Gaps = 1/71 (1%)
Query: 5 FSREKILSATSQCMNFWRKMSTVSEKRNIEDHKRRLLATKFELKRKLYKSLYRDVNLPTE 64
F ++ + + N D L+ + R ++K + +
Sbjct: 271 FHNNPDCLENFIQLDDNDIWTALKVWSNHPDKVLSTLSLGM-INRNIFKVENSAEPIGED 329
Query: 65 VREKYLCKLAR 75
++ ++++
Sbjct: 330 RIKELTLQISQ 340
>3k7a_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
DNA-binding, DNA- directed RNA polymerase, isopeptide
bond, magnesium; 3.80A {Saccharomyces cerevisiae}
Length = 345
Score = 26.1 bits (56), Expect = 4.3
Identities = 9/31 (29%), Positives = 14/31 (45%), Gaps = 2/31 (6%)
Query: 49 RKLYKSLY--RDVNLPTEVREKYLCKLARLP 77
+ YK LY RD + ++ + L LP
Sbjct: 310 KSGYKILYEHRDKLVDPQLIANGVVSLDNLP 340
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.326 0.133 0.390
Gapped
Lambda K H
0.267 0.0780 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,802,764
Number of extensions: 92615
Number of successful extensions: 196
Number of sequences better than 10.0: 1
Number of HSP's gapped: 193
Number of HSP's successfully gapped: 21
Length of query: 126
Length of database: 6,701,793
Length adjustment: 82
Effective length of query: 44
Effective length of database: 4,412,271
Effective search space: 194139924
Effective search space used: 194139924
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 51 (23.3 bits)